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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaaatattttcatctgtagtattttgtatattccttgataaaatgtatgggtatggcatgattatggaaaatattaacactctaatttattga...

Basic information

species Glycine max
transcript GLYMA16G27010.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G27010.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G048703_T01 (Zea mays), 5'ss of exon 4
GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaaatattttcatctgtagtattttgtatattccttgataaaatgtatgggtatggcatgattatggaaaatattaacactctaatttattga----
||  |||| |||   |||||||| || ||||| ||  ||||||||||||  || |||||||| |||||||||||  ||||||||| |     ||  |     | | | |    | || || |||    ||     || || |||  ||  |   |||   ||| |    |||  ||||    
GATCCTGCAAACCAGAATGGTGGCAAGTGGATAATTAGATTCAAAAAGGCAGTTTCAGGTCGATTTTGGGAGGATTTGgtaagtgaa----cttgtactatcaatgtatgtgcttttactagattgtttgctgccgtttgtcatattttggttgaatccaaactcatccattacttgagccc

upper sequence: GLYMA16G27010.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv08s0007g07290.t01 (Vitis vinifera), 5'ss of exon 4
GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaaatattttcatctgtagtattttgtatattccttgataaaatgtatgggtatggcatgattatggaaaatattaacactctaatttattga--
|| |||||||| |||||||||||||| ||||| ||  |||||||||| || || |||||||| || ||||| || ||||| ||   |||| | |  || |   ||  | |  ||| ||     ||     |     | ||  ||  || |  || || || |  |  | ||   ||||  
GATTCTGCTAATTGCAATGGTGGTAAGTGGATAATTAGATTCAAAAAAGTCGTGTCAGGTCGCTTCTGGGAAGATCTGgtgaggaaaaat-tctaaatatcatgtcctgttgatagtctacagtagt-catgcaattttgatattctttttcaatattttgagccatttatgatttgagc
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|31464192|gb|CD406220.1|CD406220
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACC--                         -----T-----G
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|57575959|gb|CX548930.1|CX548930
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|58021292|gb|CX708033.1|CX708033
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|151394261|gb|EV264132.1|EV264132
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|37995997|gb|CF807586.1|CF807586
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|58020447|gb|CX707189.1|CX707189
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACC--                         -----T-----G
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|16348486|gb|BI974081.1|BI974081
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         TTAATTGACCAG
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|192295554|gb|FG988128.1|FG988128
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|21677127|gb|BQ629478.1|BQ629478
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|58017961|gb|CX704703.1|CX704703
EST:     GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTG                         ------G-----
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCAG
EST: gi|14991741|gb|BI317414.1|BI317414
EST:     GGATTATACGATTCAAAAAGGTTGTCTCACGTCGTTTTTGGGAGGACCTG                         TTAATTGACCA
genomic: GGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaa ... aattctgaagTTAATTGACCA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACTCTGCTAACTGCAATGGTGGTAAATGGATTATACGATTCAAAAAGGTTGTCTCAGGTCGTTTTTGGGAGGACCTGgtaagtgcaaatattttcatctgtagtattttgtatattccttgataaaatgtatgggtatggcatgattatggaaaatattaacactctaatttattga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA